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Forensic DNA

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https://www.readbyqxmd.com/read/29155377/new-forensics-methods-looking-more-like-csi-rapid-dna-analysis-proteomics-and-new-technology-increasingly-impact-forensics-investigations
#1
Leslie Mertz
If CSI and those other police procedural TV shows are to be believed, criminals don't have a chance. A finger smudge on a light switch, a flake of skin, or a sweat-stained fiber is all the information an investigator needs to positively identify the perpetrator and put him or her behind bars.
November 2017: IEEE Pulse
https://www.readbyqxmd.com/read/29151121/impact-of-several-wearers-on-the-persistence-of-dna-on-clothes-a-study-with-experimental-scenarios
#2
Micaela Poetsch, Manuel Pfeifer, Helen Konrad, Thomas Bajanowski, Janine Helmus
The detection of DNA of a certain person on the inside of a piece of clothing involved in a crime scene is usually seen as confirmation that this person is the owner or bearer and therefore participated in this crime. However, besides the possibilities of secondary or even tertiary transfer of DNA, the accused often argues that he lent the garment to another person who by chance did not leave any DNA while committing the crime. Then, forensic genetic scientists have to answer the question how long DNA persists on an item used in daily routine and how long a piece of clothing must be worn to definitively leave detectable DNA behind...
November 18, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/29149210/development-and-validation-of-open-source-software-for-dna-mixture-interpretation-based-on-a-quantitative-continuous-model
#3
Sho Manabe, Chie Morimoto, Yuya Hamano, Shuntaro Fujimoto, Keiji Tamaki
In criminal investigations, forensic scientists need to evaluate DNA mixtures. The estimation of the number of contributors and evaluation of the contribution of a person of interest (POI) from these samples are challenging. In this study, we developed a new open-source software "Kongoh" for interpreting DNA mixture based on a quantitative continuous model. The model uses quantitative information of peak heights in the DNA profile and considers the effect of artifacts and allelic drop-out. By using this software, the likelihoods of 1-4 persons' contributions are calculated, and the most optimal number of contributors is automatically determined; this differs from other open-source software...
2017: PloS One
https://www.readbyqxmd.com/read/29149052/flanking-variation-influences-rates-of-stutter-in-simple-repeats
#4
August E Woerner, Jonathan L King, Bruce Budowle
It has been posited that the longest uninterrupted stretch (LUS) of tandem repeats, as defined by the number of exactly matching repeating motif units, is a better predictor of rates of stutter than the parental allele length (PAL). While there are cases where this hypothesis is likely correct, such as the 9.3 allele in the TH01 locus, there can be situations where it may not apply as well. For example, the PAL may capture flanking indel variations while remaining insensitive to polymorphisms in the repeat, and these haplotypic changes may impact the stutter rate...
November 17, 2017: Genes
https://www.readbyqxmd.com/read/29143327/location-of-artifacts-deposited-by-the-blow-fly-lucilia-cuprina-after-feeding-on-human-blood-at-simulated-indoor-crime-scenes
#5
Annalisa Durdle, Timothy J Verdon, Robert John Mitchell, Roland A H van Oorschot
Human DNA profiles can be obtained from fly artifacts (feces and regurgitant) when a fly has been feeding on biological material, sometimes 2 years after deposition. Morphological similarity between artifacts and spots of unaltered biological material make it difficult to distinguish between them, and presumptive and confirmatory forensic tests are unreliable in making the distinction. Knowing possible artifact locations will assist investigators in recognizing where DNA contamination might occur. Flies were released into a house with human blood available under a variety of different climatic and lighting conditions...
November 16, 2017: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/29130757/international-barcode-of-life-focus-on-big-biodiversity-in-south-africa
#6
Sarah J Adamowicz, Peter M Hollingsworth, Sujeevan Ratnasingham, Michelle van der Bank
Participants in the 7th International Barcode of Life Conference (Kruger National Park, South Africa, 20-24 November 2017) share the latest findings in DNA barcoding research and its increasingly diversified applications. Here, we review prevailing trends synthesized from among 429 invited and contributed abstracts, which are collated in this open-access special issue of Genome. Hosted for the first time on the African continent, the 7th Conference places special emphasis on the evolutionary origins, biogeography, and conservation of African flora and fauna...
November 2017: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/29128654/kastle-meyer-blood-test-reagents-are-deleterious-to-dna
#7
James Sloots, Wendy Lalonde, Barbara Reid, Jonathan Millman
The Kastle-Meyer (KM) test is a quick and easy chemical test for blood used in forensic analyses. Two practical variations of this test are the KM-rub (indirect) test and the more sensitive KM-direct test, the latter of which is performed by applying reagents directly to a suspected blood stain. This study found that sodium hydroxide present in the KM reagents eliminated the potential to generate a DNA profile when applied directly to small quantities of blood. A modified approach to the KM-rub test that increases its sensitivity is presented as a method to replace destructive KM-direct testing...
October 13, 2017: Forensic Science International
https://www.readbyqxmd.com/read/29128545/massive-parallel-sequencing-of-mitochondrial-dna-genomes-from-mother-child-pairs-using-the-ion-torrent-personal-genome-machine-pgm
#8
Ke Ma, Xueying Zhao, Hui Li, Yu Cao, Wei Li, Jian Ouyang, Lu Xie, Wenbin Liu
Mitochondrial genome analysis is a potent tool in forensic practice and in the understanding of human phylogeny in the maternal lineage. With the development of molecular biology and bioinformatics techniques, high-throughput sequencing has enabled mtDNA analysis during whole genome sequencing, which provides more comprehensive information and raises the power of discrimination. In this study, peripheral blood samples were taken from 194 mother-offspring pairs and sequenced by Ion Torrent Personal Genome Machine and obtained high-coverage mitochondrial sequencing data, demonstrating the mutation levels at each position in the mitochondrial DNA (mtDNA) between maternally related pairs...
November 6, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/29126000/direct-pcr-amplification-of-dna-from-human-bloodstains-saliva-and-touch-samples-collected-with-microfloq-%C3%A2-swabs
#9
Angie Ambers, Rachel Wiley, Nicole Novroski, Bruce Budowle
Previous studies have shown that nylon flocked swabs outperform traditional fiber swabs in DNA recovery due to their innovative design and lack of internal absorbent core to entrap cellular materials. The microFLOQ(®) Direct swab, a miniaturized version of the 4N6 FLOQSwab(®), has a small swab head that is treated with a lysing agent which allows for direct amplification and DNA profiling from sample collection to final result in less than two hours. Additionally, the microFLOQ(®) system subsamples only a minute portion of a stain and preserves the vast majority of the sample for subsequent testing or re-analysis, if desired...
October 26, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/29125988/quantification-of-nitrogenous-bases-dna-and-collagen-type-i-for-the-estimation-of-the-postmortem-interval-in-bone-remains
#10
Cristina Pérez-Martínez, María D Pérez-Cárceles, Isabel Legaz, Gemma Prieto-Bonete, Aurelio Luna
Estimating the postmortem interval (PMI) is an important goal in forensic medicine and continues to be one of the most difficult tasks of the forensic investigator. Few accurate methods exist to determine the time since death of skeletonized human remains due to the great number of intrinsic and external factors that may alter the normal course of postmortem change. The purpose of this research was to assess the usefulness of various biochemical parameters, such as nitrogenous bases (adenine, guanine, purines, cytosine, thymine, pyrimidines, hypoxanthine and xanthine), DNA and Collagen Type I peptides to estimate PMI...
November 4, 2017: Forensic Science International
https://www.readbyqxmd.com/read/29125964/null-alleles-and-sequence-variations-at-primer-binding-sites-of-str-loci-within-multiplex-typing-systems
#11
Yining Yao, Qinrui Yang, Chengchen Shao, Baonian Liu, Yuxiang Zhou, Hongmei Xu, Yueqin Zhou, Qiqun Tang, Jianhui Xie
Rare variants are widely observed in human genome and sequence variations at primer binding sites might impair the process of PCR amplification resulting in dropouts of alleles, named as null alleles. In this study, 5 cases from routine paternity testing using PowerPlex(®)21 System for STR genotyping were considered to harbor null alleles at TH01, FGA, D5S818, D8S1179, and D16S539, respectively. The dropout of alleles was confirmed by using alternative commercial kits AGCU Expressmarker 22 PCR amplification kit and AmpFℓSTR(®)...
October 28, 2017: Legal Medicine
https://www.readbyqxmd.com/read/29125963/a-capillary-electrophoresis-method-for-identifying-forensically-relevant-body-fluids-using-mirnas
#12
Carrie Mayes, Sarah Seashols-Williams, Sheree Hughes-Stamm
Body fluid identification (BFID) can provide crucial information during the course of an investigation. In recent years, microRNAs (miRNAs) have shown considerable body fluid specificity, are able to be co-extracted with DNA, and their small size (18-25 nucleotides) make them ideal for analyzing highly degraded forensic samples. In this study, we designed a preliminary 8-marker system for BFID including an endogenous reference gene (let-7g) to differentiate between venous blood (miR-451a and miR-142-3p), menstrual blood (miR-141-3p and miR-412-3p), semen (miR-891a and miR-10b), and saliva (miR-205) using a capillary electrophoresis approach...
October 31, 2017: Legal Medicine
https://www.readbyqxmd.com/read/29125104/polymorphisms-of-23-y-chromosome-str-loci-in-a-han-population-in-jiangsu-province
#13
Jun Ma, Ai-Hua Zhu, Jin-Wei Shi, Ming Jin, Hua-Jie Ba, Zhi-Guang Ping
Objective To investigate the polymorphisms of 23 Y-STR loci in a Han population in Jiangsu province. Methods Blood samples were collected from 4821 unrelated healthy Han males in Jiangsu province. DNA templates were amplified by PowerPlex Y23 kit,and the amplification products were detected by 3500xL genetic analyzer. Then,we calculated the allele frequencies and gene diversities respectively,as well as the haplotype frequencies and haplotype diversities. Results The gene diversity of these 23 Y-STR loci ranged 0...
October 30, 2017: Zhongguo Yi Xue Ke Xue Yuan Xue Bao. Acta Academiae Medicinae Sinicae
https://www.readbyqxmd.com/read/29121662/qualitative-and-quantitative-assessment-of-illumina-s-forensic-str-and-snp-kits-on-miseq-fgx%C3%A2
#14
Vishakha Sharma, Hoi Yan Chow, Donald Siegel, Elisa Wurmbach
Massively parallel sequencing (MPS) is a powerful tool transforming DNA analysis in multiple fields ranging from medicine, to environmental science, to evolutionary biology. In forensic applications, MPS offers the ability to significantly increase the discriminatory power of human identification as well as aid in mixture deconvolution. However, before the benefits of any new technology can be employed, a thorough evaluation of its quality, consistency, sensitivity, and specificity must be rigorously evaluated in order to gain a detailed understanding of the technique including sources of error, error rates, and other restrictions/limitations...
2017: PloS One
https://www.readbyqxmd.com/read/29121165/perf-an-exhaustive-algorithm-for-ultra-fast-and-efficient-identification-of-microsatellites-from-large-dna-sequences
#15
Akshay Kumar Avvaru, Divya Tej Sowpati, Rakesh Kumar Mishra
Motivation: Microsatellites or Simple Sequence Repeats (SSRs) are short tandem repeats of DNA motifs present in all genomes. They have long been used for a variety of purposes in the areas of population genetics, genotyping, marker-assisted selection, and forensics. Numerous studies have highlighted their functional roles in genome organization and gene regulation. Though several tools are currently available to identify SSRs from genomic sequences, they have significant limitations. Results: We present a novel algorithm called PERF for extremely fast and comprehensive identification of microsatellites from DNA sequences of any size...
November 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29103098/population-data-of-21-autosomal-str-loci-in-the-hausa-igbo-and-yoruba-people-of-nigeria
#16
Victoria O Okolie, Selena Cisana, Moses S Schanfield, Khalid O Adekoya, Olufemi A Oyedeji, Daniele Podini
The three major ethnic groups of Nigerian population namely the Hausa, Igbo and Yoruba make up 29, 21 and 18% of the total population, respectively. To provide genetic information necessary for forensic analysis, this study was carried out to determine STR allele frequencies in 102 Hausa, 128 Igbo and 134 Yoruba individuals in Nigeria using 21 STR loci including the 20 CODIS (Combined DNA Index System) loci plus SE33.
November 4, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/29102834/establishment-of-an-alternative-efficiently-genotyping-strategy-for-human-abo-gene
#17
Enzhu Jiang, Peifu Yu, Siyi Zhang, Chunmei Li, Mei Ding, Baojie Wang, Hao Pang
ABO genotyping is used in several disciplines, including transfusion, transplantation, human evolution, and forensic medicine. Detection of single nucleotide polymorphisms (SNPs) on a locus is a common way to identify different genotypes. In this study we developed a strategy for ABO genotyping, which can rapidly and efficiently detect SNPs. DNA fragments containing 4 SNPs in the ABO gene (c.261delG, c.297A > G, c.1009A > G, and c.1061delC) were amplified using individually and multiplexed polymerase chain reaction (PCR)-based methods and subsequently genotyped by high-resolution melting (HRM) analysis...
November 1, 2017: Legal Medicine
https://www.readbyqxmd.com/read/29102833/touch-dna-sampling-with-scenesafe-fast%C3%A2-minitapes
#18
Britta Stoop, Priscille Merciani Defaux, Silvia Utz, Martin Zieger
To achieve optimal results in the forensic analysis of trace DNA, choosing the right collection technique is crucial. Three common approaches are currently well-established for DNA retrieval from items of clothing, notably cutting, swabbing and tape-lifting. The latter two are non-destructive and therefore preferable on items of value. Even though the most recently established technique of DNA retrieval by adhesive tapes is widely used since quite some years now, little information has been published so far on how well it performs compared to other methods...
October 27, 2017: Legal Medicine
https://www.readbyqxmd.com/read/29101892/performance-evaluation-of-a-mitogenome-capture-and-illumina-sequencing-protocol-using-non-probative-case-type-skeletal-samples-implications-for-the-use-of-a-positive-control-in-a-next-generation-sequencing-procedure
#19
Charla Marshall, Kimberly Sturk-Andreaggi, Jennifer Daniels-Higginbotham, Robert Sean Oliver, Suzanne Barritt-Ross, Timothy P McMahon
Next-generation ancient DNA technologies have the potential to assist in the analysis of degraded DNA extracted from forensic specimens. Mitochondrial genome (mitogenome) sequencing, specifically, may be of benefit to samples that fail to yield forensically relevant genetic information using conventional PCR-based techniques. This report summarizes the Armed Forces Medical Examiner System's Armed Forces DNA Identification Laboratory's (AFMES-AFDIL) performance evaluation of a Next-Generation Sequencing protocol for degraded and chemically treated past accounting samples...
September 8, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/29099833/how-convincing-is-a-matching-y-chromosome-profile
#20
Mikkel M Andersen, David J Balding
The introduction of forensic autosomal DNA profiles was controversial, but the problems were successfully addressed, and DNA profiling has gone on to revolutionise forensic science. Y-chromosome profiles are valuable when there is a mixture of male-source and female-source DNA, and interest centres on the identity of the male source(s) of the DNA. The problem of evaluating evidential weight is even more challenging for Y profiles than for autosomal profiles. Numerous approaches have been proposed, but they fail to deal adequately with the fact that men with matching Y-profiles are related in extended patrilineal clans, many of which may not be represented in available databases...
November 2017: PLoS Genetics
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